On Nov 18, 2007, at 10:16 AM, Francesco Pietra wrote:
Manually graphically? Neither the POPC molecules nor the water molecules embedded in have a number, only detectable on file through their xyz values. I understand that there is no trick to delete around the protein, by say 1A distance.
Hi Francesco, I am not sure I understand your question, but in Chimera/graphically you can of course make a selection of the lipid molecules within some zone of the structure and then delete the selection. I just meant there is no function that combines the steps for you. For example, if you had the membrane as model 0 in Chimera and the protein as model 1, these commands would select and remove lipid residues within 1.5 A of the protein: select #0 & #1 z<1.5 delete sel Best Elaine ----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html